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    single-stranded DNA endonuclease family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 824051, updated on 18-Sep-2024

    Summary

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    Official Full Name
    single-stranded DNA endonuclease family protein
    Primary source
    TAIR:AT3G48900
    Locus tag
    AT3G48900
    See related
    Araport:AT3G48900
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    AtSEND1; SEND1
    Summary
    Encodes one of two GEN1 homologs in Arabidopsis. It is a member of the class IV Rad2/XPG family of nucleases that processes Holliday junctions in a manner analogous to the HJ resolvases of phages, archaea, and bacteria.
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    14
    Sequence:
    Chromosome: 3; NC_003074.8 (18131808..18136485)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene RNI-like superfamily protein Neighboring gene membrane-associated progesterone binding protein 3 Neighboring gene myb domain protein 45 Neighboring gene Nucleic acid-binding, OB-fold-like protein Neighboring gene Remorin family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. AtGEN1 and AtSEND1, two paralogs in Arabidopsis, possess holliday junction resolvase activity. Bauknecht M, et al. Plant Physiol, 2014 Sep. PMID 25037209, Free PMC Article
    2. The Structure-Specific Endonucleases MUS81 and SEND1 Are Essential for Telomere Stability in Arabidopsis. Olivier M, et al. Plant Cell, 2016 Jan. PMID 26704385, Free PMC Article
    3. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    NM_001125323.2
    NM_001339388.1
    NM_114749.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables 5'-flap endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables crossover junction DNA endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA repair IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in UV protection IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in telomere maintenance IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    single-stranded DNA endonuclease family protein
    NP_001118795.1
    • single-stranded DNA endonuclease family protein; FUNCTIONS IN: chromatin binding, DNA binding, catalytic activity, nuclease activity; INVOLVED IN: DNA repair, chromatin assembly or disassembly; LOCATED IN: chromatin, nucleus; EXPRESSED IN: 6 plant structures; EXPRESSED DURING: F mature embryo stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: XPG N-terminal (InterPro:IPR006085), DNA repair protein (XPGC)/yeast Rad (InterPro:IPR006084), Chromo domain-like (InterPro:IPR016197), 5'-3' exonuclease, C-terminal subdomain (InterPro:IPR020045), Chromo domain (InterPro:IPR000953), XPG/RAD2 endonuclease (InterPro:IPR006086); BEST Arabidopsis thaliana protein match is: 5'-3' exonuclease family protein (TAIR:AT1G01880.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    NP_190459.2
    • single-stranded DNA endonuclease family protein; FUNCTIONS IN: chromatin binding, DNA binding, catalytic activity, nuclease activity; INVOLVED IN: DNA repair, chromatin assembly or disassembly; LOCATED IN: chromatin, endomembrane system, nucleus; EXPRESSED IN: 6 plant structures; EXPRESSED DURING: F mature embryo stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: DNA repair protein (XPGC)/yeast Rad (InterPro:IPR006084), Chromo domain-like (InterPro:IPR016197), 5'-3' exonuclease, C-terminal subdomain (InterPro:IPR020045), Chromo domain (InterPro:IPR000953), XPG/RAD2 endonuclease (InterPro:IPR006086); BEST Arabidopsis thaliana protein match is: 5'-3' exonuclease family protein (TAIR:AT3G28030.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003074.8 Reference assembly

      Range
      18131808..18136485
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001125323.2 → NP_001118795.1  single-stranded DNA endonuclease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001118795.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B3H5Z3, Q9M2Z3, Q9SMT0
      UniProtKB/TrEMBL
      A0A5S9XJD2, A0A654FFF1, A0A7G2ER85
      Conserved Domains (3) summary
      TIGR00600
      Location:105 → 365
      rad2; DNA excision repair protein (rad2)
      cd09869
      Location:2 → 203
      PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
      pfam18704
      Location:385 → 429
      Chromo_2; Chromatin organization modifier domain 2

    2. NM_114749.3 → NP_190459.2  single-stranded DNA endonuclease family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_190459.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A7G2ER85
      Conserved Domains (3) summary
      TIGR00600
      Location:41 → 301
      rad2; DNA excision repair protein (rad2)
      pfam18704
      Location:321 → 365
      Chromo_2; Chromatin organization modifier domain 2
      cl28905
      Location:41 → 139
      PIN_SF; PIN (PilT N terminus) domain: Superfamily

    3. NM_001339388.1 → NP_001325691.1  single-stranded DNA endonuclease family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LM08, A0A7G2ER85
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9M2Z3.2

    Gene LinkOut

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